cummeRbund csHeatmap error
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Last seen 9.6 years ago
I am trying out cummeRbund. Everything seems to be working fine. I tried most of the commands from the tutorial and they all produce reasonable output. However, when I run csHeatmap, I get the following error: > csHeatmap(genes(cuff)) Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ???csHeatmap??? for signature ???"CuffData"??? even without any arguments: > csHeatmap() Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ???csHeatmap??? for signature ???"missing"??? Based on some searching, this does not seem like this is a common issue. Thus, I thought this might be a bug related to my setup, but I am getting this error on two different machines. Any idea what could be causing this? Thank you. -- output of sessionInfo(): R version 3.0.2 (2013-09-25) Platform: x86_64-redhat-linux-gnu (64-bit) locale: [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8 LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C LC_ADDRESS=C LC_TELEPHONE=C LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C attached base packages: [1] grid parallel stats graphics grDevices utils datasets methods base other attached packages: [1] mgcv_1.7-28 nlme_3.1-113 cummeRbund_2.4.1 Gviz_1.6.0 rtracklayer_1.22.3 GenomicRanges_1.14.4 XVector_0.2.0 IRanges_1.20.6 [9] fastcluster_1.1.13 reshape2_1.2.2 ggplot2_0.9.3.1 RSQLite_0.11.4 DBI_0.2-7 BiocGenerics_0.8.0 loaded via a namespace (and not attached): [1] AnnotationDbi_1.24.0 Biobase_2.22.0 biomaRt_2.18.0 Biostrings_2.30.1 biovizBase_1.10.7 bitops_1.0-6 BSgenome_1.30.0 [8] cluster_1.14.4 colorspace_1.2-4 dichromat_2.0-0 digest_0.6.4 Formula_1.1-1 GenomicFeatures_1.14.2 gtable_0.1.2 [15] Hmisc_3.14-0 labeling_0.2 lattice_0.20-24 latticeExtra_0.6-26 MASS_7.3-29 Matrix_1.1-2 munsell_0.4.2 [22] plyr_1.8 proto_0.3-10 RColorBrewer_1.0-5 RCurl_1.95-4.1 Rsamtools_1.14.2 scales_0.2.3 splines_3.0.2 [29] stats4_3.0.2 stringr_0.6.2 survival_2.37-7 tools_3.0.2 XML_3.98-1.1 zlibbioc_1.8.0 -- Sent via the guest posting facility at bioconductor.org.
cummeRbund cummeRbund • 946 views
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